Computational Comparison Studies of Quadratic Assignment Like Formulations for the In Silico Sequence Selection Problem in De Novo Protein Design
Author
Abstract
Suggested Citation
DOI: 10.1007/s10878-005-1859-8
Download full text from publisher
As the access to this document is restricted, you may want to search for a different version of it.
References listed on IDEAS
- Fred Glover, 1975. "Improved Linear Integer Programming Formulations of Nonlinear Integer Problems," Management Science, INFORMS, vol. 22(4), pages 455-460, December.
- Oral, Muhittin & Kettani, Ossama, 1992. "Reformulating nonlinear combinatorial optimization problems for higher computational efficiency," European Journal of Operational Research, Elsevier, vol. 58(2), pages 236-249, April.
Citations
Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
Cited by:
- Joonghyun Ryu & Deok-Soo Kim, 2013. "Protein structure optimization by side-chain positioning via beta-complex," Journal of Global Optimization, Springer, vol. 57(1), pages 217-250, September.
- Andrew C. Trapp & Oleg A. Prokopyev, 2010. "Solving the Order-Preserving Submatrix Problem via Integer Programming," INFORMS Journal on Computing, INFORMS, vol. 22(3), pages 387-400, August.
Most related items
These are the items that most often cite the same works as this one and are cited by the same works as this one.- Sven Mallach, 2018. "Compact linearization for binary quadratic problems subject to assignment constraints," 4OR, Springer, vol. 16(3), pages 295-309, September.
- Yokoyama, Ryohei & Kitano, Hiroyuki & Wakui, Tetsuya, 2017. "Optimal operation of heat supply systems with piping network," Energy, Elsevier, vol. 137(C), pages 888-897.
- Tian, Xueyu & You, Fengqi, 2019. "Carbon-neutral hybrid energy systems with deep water source cooling, biomass heating, and geothermal heat and power," Applied Energy, Elsevier, vol. 250(C), pages 413-432.
- Longinidis, Pantelis & Georgiadis, Michael C., 2014. "Integration of sale and leaseback in the optimal design of supply chain networks," Omega, Elsevier, vol. 47(C), pages 73-89.
- Rostami, Borzou & Chassein, André & Hopf, Michael & Frey, Davide & Buchheim, Christoph & Malucelli, Federico & Goerigk, Marc, 2018. "The quadratic shortest path problem: complexity, approximability, and solution methods," European Journal of Operational Research, Elsevier, vol. 268(2), pages 473-485.
- Unai Aldasoro & María Merino & Gloria Pérez, 2019. "Time consistent expected mean-variance in multistage stochastic quadratic optimization: a model and a matheuristic," Annals of Operations Research, Springer, vol. 280(1), pages 151-187, September.
- Christodoulos Floudas & Xiaoxia Lin, 2005. "Mixed Integer Linear Programming in Process Scheduling: Modeling, Algorithms, and Applications," Annals of Operations Research, Springer, vol. 139(1), pages 131-162, October.
- Gupta, Renu & Bandopadhyaya, Lakshmisree & Puri, M. C., 1996. "Ranking in quadratic integer programming problems," European Journal of Operational Research, Elsevier, vol. 95(1), pages 231-236, November.
- Angel L. Cedeño & Reinier López Ahuar & José Rojas & Gonzalo Carvajal & César Silva & Juan C. Agüero, 2022. "Model Predictive Control for Photovoltaic Plants with Non-Ideal Energy Storage Using Mixed Integer Linear Programming," Energies, MDPI, vol. 15(17), pages 1-21, September.
- Osman, Hany & Demirli, Kudret, 2010. "A bilinear goal programming model and a modified Benders decomposition algorithm for supply chain reconfiguration and supplier selection," International Journal of Production Economics, Elsevier, vol. 124(1), pages 97-105, March.
- Verbiest, Floor & Cornelissens, Trijntje & Springael, Johan, 2019. "A matheuristic approach for the design of multiproduct batch plants with parallel production lines," European Journal of Operational Research, Elsevier, vol. 273(3), pages 933-947.
- Fabio Furini & Emiliano Traversi, 2019. "Theoretical and computational study of several linearisation techniques for binary quadratic problems," Annals of Operations Research, Springer, vol. 279(1), pages 387-411, August.
- Biswas, Debajyoti & Alfandari, Laurent, 2022. "Designing an optimal sequence of non‐pharmaceutical interventions for controlling COVID-19," European Journal of Operational Research, Elsevier, vol. 303(3), pages 1372-1391.
- Sven Mallach, 2021. "Inductive linearization for binary quadratic programs with linear constraints," 4OR, Springer, vol. 19(4), pages 549-570, December.
- Ricardo M. Lima & Ignacio E. Grossmann, 2017. "On the solution of nonconvex cardinality Boolean quadratic programming problems: a computational study," Computational Optimization and Applications, Springer, vol. 66(1), pages 1-37, January.
- Jih-Jeng Huang, 2016. "Resource decision making for vertical and horizontal integration problems in an enterprise," Journal of the Operational Research Society, Palgrave Macmillan;The OR Society, vol. 67(11), pages 1363-1372, November.
- João M. C. Sousa & Rodrigo Luís & Rui Mirra Santos & Luís Mendonça & Susana M. Vieira, 2024. "Fuzzy Multi-Item Newsvendor Problem: An Application to Inventory Management," Mathematics, MDPI, vol. 12(11), pages 1-17, May.
- Andrés Gómez & Oleg A. Prokopyev, 2021. "A Mixed-Integer Fractional Optimization Approach to Best Subset Selection," INFORMS Journal on Computing, INFORMS, vol. 33(2), pages 551-565, May.
- Dimitris Bertsimas & Ryan Cory-Wright, 2022. "A Scalable Algorithm for Sparse Portfolio Selection," INFORMS Journal on Computing, INFORMS, vol. 34(3), pages 1489-1511, May.
- Michael Brusco & Stephanie Stahl, 2001. "Compact integer-programming models for extracting subsets of stimuli from confusion matrices," Psychometrika, Springer;The Psychometric Society, vol. 66(3), pages 405-419, September.
More about this item
Keywords
peptide and protein design and discovery; drug design; in silico sequence selection; structure prediction; de novo protein design; optimization;All these keywords.
Statistics
Access and download statisticsCorrections
All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:spr:jcomop:v:10:y:2005:i:1:d:10.1007_s10878-005-1859-8. See general information about how to correct material in RePEc.
If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.
If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .
If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.
For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.springer.com .
Please note that corrections may take a couple of weeks to filter through the various RePEc services.